Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01009023.1 Hibiscus syriacus cultivar Beakdansim tig00112416_pilon, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 540103
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33


File 3 of 3

Found at i:527631 original size:44 final size:45

Alignment explanation


    Indices: 527568--527656  Score: 128
    Period size: 44  Copynumber: 2.0  Consensus size: 45

     527558 CAATCTCTAT

                                           *       *     
     527568 TTTAAACTCTCCCAATTCTTAAGTAGTATCCGA-TTAACGAAAGA
          1 TTTAAACTCTCCCAATTCTTAAGTAGTATCCAATTTAACAAAAGA

                    *                                     
     527612 TTTAAA-TTTCCCTAATTCTTAAGTAGTATCCAATTTAACAAAAGA
          1 TTTAAACTCTCCC-AATTCTTAAGTAGTATCCAATTTAACAAAAGA

     527657 ACTCGATAAG


Statistics
Matches: 40,  Mismatches: 3, Indels: 3
        0.87            0.07        0.07

Matches are distributed among these distances:
  43    5  0.12
  44   25  0.62
  45   10  0.25

ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35


Consensus pattern (45 bp):   
TTTAAACTCTCCCAATTCTTAAGTAGTATCCAATTTAACAAAAGA

Found at i:531482 original size:2 final size:2

Alignment explanation


    Indices: 531475--531521  Score: 94
    Period size: 2  Copynumber: 23.5  Consensus size: 2

     531465 AATTCACCGT

                                                                          
     531475 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

                   
     531517 TA TA T
          1 TA TA T

     531522 GGACGGAGCT


Statistics
Matches: 45,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   45  1.00

ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51


Consensus pattern (2 bp):   
TA

Found at i:537463 original size:15 final size:15

Alignment explanation


    Indices: 537443--537473  Score: 53
    Period size: 15  Copynumber: 2.1  Consensus size: 15

     537433 CTATATATAT

                           
     537443 ATACTTGTATTAGAC
          1 ATACTTGTATTAGAC

                       *   
     537458 ATACTTGTATTTGAC
          1 ATACTTGTATTAGAC

             
     537473 A
          1 A

     537474 CTTGATCATA


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  15   15  1.00

ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42


Consensus pattern (15 bp):   
ATACTTGTATTAGAC

Done.